A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.
/lustre07/scratch/karencgs/Cannabis_sativa/fastpReports
General Statistics
| Sample Name | % Duplication | % > Q30 | Mb Q30 bases | Reads After Filtering | GC content | % PF | % Adapter |
|---|---|---|---|---|---|---|---|
| SRR192369_1 | 39.9% | 95.6% | 4614.2Mb | 65.3M | 50.1% | 94.3% | 9.0% |
| SRR192370_1 | 46.5% | 96.3% | 4781.0Mb | 66.5M | 47.7% | 97.2% | 2.1% |
| SRR192371_1 | 32.2% | 96.8% | 4813.1Mb | 67.1M | 45.8% | 95.4% | 8.3% |
| SRR192372_1 | 25.3% | 96.9% | 5108.5Mb | 70.9M | 44.8% | 96.3% | 4.6% |
| SRR192373_1 | 51.6% | 97.3% | 4349.3Mb | 60.0M | 50.7% | 96.9% | 4.1% |
| SRR306861 | 60.1% | 95.4% | 1045.7Mb | 31.3M | 45.2% | 96.1% | |
| SRR306862 | 64.2% | 95.6% | 1079.6Mb | 32.3M | 45.3% | 95.6% | |
| SRR306863 | 61.8% | 97.3% | 878.3Mb | 25.8M | 46.0% | 98.2% | |
| SRR306864 | 70.0% | 96.7% | 1008.8Mb | 29.8M | 44.0% | 93.2% | 5.1% |
| SRR306865 | 71.1% | 96.7% | 996.3Mb | 29.5M | 44.4% | 92.3% | 6.0% |
| SRR306866 | 71.5% | 96.1% | 1036.6Mb | 30.9M | 47.9% | 95.2% | 2.7% |
| SRR306867 | 65.9% | 95.7% | 939.8Mb | 28.1M | 48.0% | 94.2% | 1.9% |
| SRR306868 | 59.5% | 95.6% | 1085.8Mb | 32.5M | 47.2% | 94.4% | 1.6% |
| SRR306869 | 57.4% | 92.5% | 888.8Mb | 27.5M | 47.2% | 93.2% | |
| SRR306870 | 60.9% | 94.8% | 935.4Mb | 28.3M | 45.8% | 94.3% | |
| SRR306871 | 76.3% | 95.9% | 892.2Mb | 26.6M | 49.5% | 93.9% | 1.1% |
| SRR306872 | 82.1% | 96.0% | 900.3Mb | 26.9M | 50.1% | 94.4% | 0.8% |
| SRR306874 | 70.9% | 95.3% | 1011.8Mb | 30.4M | 46.9% | 93.7% | 0.8% |
| SRR306875 | 71.3% | 96.0% | 978.3Mb | 29.2M | 48.5% | 95.2% | 0.5% |
| SRR306877 | 65.6% | 97.0% | 901.3Mb | 26.6M | 42.5% | 96.8% | |
| SRR306884 | 73.7% | 94.8% | 1023.1Mb | 30.9M | 47.1% | 95.6% | 1.0% |
| SRR306885 | 71.5% | 94.6% | 1050.9Mb | 31.8M | 45.2% | 96.0% | 0.4% |
| SRR306886 | 82.3% | 96.6% | 857.1Mb | 25.4M | 44.6% | 97.6% | 0.4% |
| SRR351932 | 56.9% | 100.0% | 339.6Mb | 8.9M | 43.6% | 99.9% | 0.2% |
| SRR351933 | 50.7% | 100.0% | 875.5Mb | 9.2M | 43.4% | 100.0% | |
| SRR352195 | 56.4% | 100.0% | 3555.1Mb | 37.8M | 43.6% | 100.0% | 8.7% |
| SRR352196 | 68.7% | 100.0% | 3540.9Mb | 37.4M | 44.4% | 99.7% | 1.4% |
| SRR352198 | 61.7% | 100.0% | 5132.5Mb | 54.0M | 43.5% | 100.0% | |
| SRR352200 | 64.9% | 100.0% | 5277.3Mb | 55.6M | 44.3% | 100.0% | 1.3% |
| SRR352201 | 58.3% | 100.0% | 5686.3Mb | 60.2M | 43.7% | 99.7% | 3.4% |
| SRR352202 | 62.3% | 100.0% | 3485.3Mb | 37.3M | 45.0% | 99.9% | 16.0% |
| SRR10600874_1 | 31.0% | 94.6% | 6213.0Mb | 49.1M | 49.0% | 94.6% | 0.2% |
| SRR10600875_1 | 33.6% | 95.2% | 10756.8Mb | 83.9M | 48.9% | 94.8% | 0.2% |
| SRR10600877_1 | 44.7% | 92.6% | 7682.2Mb | 65.5M | 53.3% | 93.3% | 0.2% |
| SRR10600878_1 | 26.3% | 95.6% | 8091.6Mb | 62.6M | 46.2% | 94.1% | 0.1% |
| SRR10600879_1 | 37.5% | 95.5% | 10754.3Mb | 84.2M | 48.2% | 94.3% | 0.2% |
| SRR10600880_1 | 29.9% | 95.6% | 7778.3Mb | 60.4M | 47.2% | 93.7% | 0.2% |
| SRR10600881_1 | 28.1% | 95.7% | 4938.2Mb | 38.4M | 47.3% | 94.4% | 0.2% |
| SRR10600882_1 | 24.6% | 95.5% | 8426.2Mb | 65.3M | 45.8% | 93.0% | 0.1% |
| SRR10600883_1 | 32.5% | 95.5% | 11325.0Mb | 88.2M | 46.3% | 93.6% | 0.2% |
| SRR10600884_1 | 35.1% | 96.4% | 16077.1Mb | 122.9M | 45.4% | 94.0% | 0.2% |
| SRR10600885_1 | 46.1% | 96.5% | 18131.2Mb | 138.6M | 46.0% | 95.2% | 0.3% |
| SRR10600888_1 | 43.6% | 95.3% | 10456.5Mb | 82.7M | 51.5% | 95.4% | 0.2% |
| SRR10600889_1 | 17.3% | 94.4% | 5070.1Mb | 40.7M | 46.2% | 93.4% | 0.3% |
| SRR10600890_1 | 38.0% | 95.5% | 6106.7Mb | 47.5M | 49.8% | 91.3% | 0.1% |
| SRR10600892_1 | 47.5% | 96.1% | 15480.6Mb | 119.8M | 49.6% | 94.4% | 0.2% |
| SRR10600893_1 | 33.4% | 95.4% | 18784.7Mb | 146.3M | 47.7% | 90.3% | 0.1% |
| SRR10600894_1 | 39.2% | 94.4% | 14839.9Mb | 119.3M | 50.7% | 94.5% | 0.2% |
| SRR10600896_1 | 29.8% | 94.4% | 18348.9Mb | 146.7M | 48.2% | 93.5% | 0.2% |
| SRR10600899_1 | 29.2% | 94.7% | 7768.5Mb | 60.9M | 48.8% | 93.7% | 0.1% |
| SRR10600900_1 | 31.8% | 94.4% | 44598.8Mb | 357.7M | 47.0% | 93.1% | 0.2% |
| SRR10600901_1 | 24.7% | 94.7% | 4107.7Mb | 32.8M | 48.5% | 94.3% | 0.2% |
| SRR10600902_1 | 39.3% | 95.6% | 13381.3Mb | 102.7M | 49.8% | 93.2% | 0.1% |
| SRR10600903_1 | 45.1% | 95.7% | 12728.9Mb | 98.9M | 50.4% | 94.1% | 0.2% |
| SRR10600904_1 | 43.6% | 95.7% | 12024.0Mb | 92.1M | 50.1% | 94.2% | 0.1% |
| SRR10600905_1 | 37.5% | 95.7% | 17078.6Mb | 131.1M | 48.9% | 93.5% | 0.1% |
| SRR10600906_1 | 35.3% | 95.8% | 6439.7Mb | 49.5M | 49.5% | 93.5% | 0.1% |
| SRR10600907_1 | 33.5% | 95.1% | 7317.7Mb | 57.3M | 49.7% | 94.9% | 0.2% |
| SRR10600908_1 | 33.2% | 94.8% | 6699.3Mb | 52.4M | 49.7% | 94.2% | 0.1% |
| SRR10600909_1 | 39.3% | 95.6% | 13262.2Mb | 102.0M | 48.9% | 93.0% | 0.1% |
| SRR10600910_1 | 29.3% | 94.6% | 8854.3Mb | 69.8M | 48.5% | 94.0% | 0.1% |
| SRR10600911_1 | 40.5% | 95.8% | 10753.3Mb | 82.3M | 50.0% | 93.9% | 0.1% |
| SRR10600912_1 | 32.0% | 95.0% | 7915.8Mb | 61.7M | 49.1% | 94.6% | 0.1% |
| SRR10600913_1 | 32.3% | 95.0% | 7640.3Mb | 59.8M | 49.1% | 94.7% | 0.2% |
| SRR10600914_1 | 37.6% | 96.0% | 11300.1Mb | 86.8M | 48.9% | 94.2% | 0.2% |
| SRR10600915_1 | 28.9% | 95.2% | 14753.6Mb | 115.0M | 47.5% | 92.5% | 0.1% |
| SRR10600916_1 | 38.5% | 95.5% | 7606.6Mb | 58.6M | 49.9% | 93.2% | 0.1% |
| SRR10600917_1 | 34.3% | 95.1% | 14381.5Mb | 111.9M | 49.1% | 92.5% | 0.1% |
| SRR10600918_1 | 42.0% | 96.5% | 13193.3Mb | 100.9M | 47.4% | 95.8% | 0.2% |
| SRR10600919_1 | 42.3% | 95.8% | 14458.7Mb | 111.2M | 49.9% | 94.2% | 0.1% |
| SRR10600920_1 | 30.6% | 95.0% | 9725.4Mb | 76.2M | 48.7% | 94.2% | 0.2% |
| SRR10600921_1 | 38.3% | 96.0% | 11725.9Mb | 90.0M | 49.3% | 94.2% | 0.1% |
| SRR10600922_1 | 36.4% | 95.6% | 4899.3Mb | 37.7M | 49.9% | 92.9% | 0.1% |
| SRR10600923_1 | 36.8% | 95.6% | 8275.0Mb | 63.5M | 49.3% | 93.3% | 0.1% |
| SRR10600924_1 | 48.0% | 95.6% | 22241.4Mb | 170.7M | 50.4% | 93.2% | 0.1% |
| SRR10600925_1 | 35.0% | 95.8% | 7680.6Mb | 59.1M | 49.6% | 93.9% | 0.1% |
| SRR10600926_1 | 42.5% | 95.7% | 19221.6Mb | 148.4M | 49.5% | 92.7% | 0.1% |
| SRR10600927_1 | 34.3% | 95.8% | 11300.5Mb | 86.9M | 48.2% | 93.9% | 0.1% |
| SRR10600928_1 | 35.2% | 95.0% | 8201.0Mb | 64.2M | 49.9% | 95.0% | 0.1% |
| SRR10600929_1 | 43.8% | 95.5% | 7450.3Mb | 58.3M | 51.8% | 95.8% | 0.2% |
| SRR10600930_1 | 52.3% | 96.3% | 9946.9Mb | 76.6M | 51.8% | 95.5% | 0.2% |
| SRR10600931_1 | 35.2% | 94.9% | 8644.5Mb | 68.4M | 49.7% | 94.8% | 0.2% |
| SRR10600932_1 | 34.9% | 95.8% | 8009.7Mb | 61.7M | 48.1% | 93.7% | 0.2% |
| SRR10600933_1 | 50.8% | 95.2% | 10854.5Mb | 85.7M | 52.4% | 95.4% | 0.2% |
| SRR10600934_1 | 48.2% | 96.1% | 12254.6Mb | 94.2M | 52.4% | 95.4% | 0.2% |
| SRR10600935_1 | 27.2% | 94.8% | 7699.9Mb | 60.3M | 48.1% | 94.2% | 0.1% |
| SRR10600936_1 | 28.8% | 95.0% | 6850.2Mb | 53.7M | 48.3% | 94.7% | 0.2% |
| SRR10600937_1 | 34.7% | 95.2% | 9004.3Mb | 71.2M | 49.3% | 95.3% | 0.2% |
| SRR10600938_1 | 27.4% | 95.0% | 6818.3Mb | 53.5M | 47.9% | 94.2% | 0.2% |
| SRR10600939_1 | 28.5% | 95.2% | 8013.5Mb | 62.6M | 48.1% | 94.9% | 0.2% |
| SRR10600940_1 | 34.6% | 95.9% | 7164.5Mb | 55.2M | 49.1% | 94.3% | 0.2% |
| SRR10600941_1 | 26.2% | 94.5% | 8830.9Mb | 69.8M | 47.4% | 93.9% | 0.1% |
| SRR10600942_1 | 30.2% | 95.1% | 8541.7Mb | 66.8M | 48.1% | 94.5% | 0.1% |
| SRR10600943_1 | 26.7% | 95.3% | 5533.6Mb | 43.4M | 47.8% | 94.8% | 0.2% |
| SRR10600944_1 | 31.6% | 95.0% | 8672.8Mb | 68.2M | 49.1% | 94.6% | 0.2% |
| SRR28955708_1 | 26.0% | 100.0% | 5957.9Mb | 40.4M | 43.2% | 100.0% | 17.1% |
| SRR28955709_1 | 24.0% | 100.0% | 7963.6Mb | 54.8M | 44.2% | 100.0% | 26.1% |
| SRR28955710_1 | 26.3% | 100.0% | 7536.7Mb | 51.4M | 43.6% | 100.0% | 20.4% |
| SRR29474897_1 | 33.0% | 92.7% | 8087.9Mb | 58.8M | 45.0% | 98.2% | 1.4% |
| SRR29474898_1 | 26.0% | 93.0% | 8097.9Mb | 58.7M | 44.5% | 98.4% | 1.6% |
| SRR29474899_1 | 29.1% | 93.1% | 7926.0Mb | 57.3M | 44.6% | 98.5% | 1.3% |
| SRR29474900_1 | 31.3% | 92.8% | 8212.1Mb | 59.6M | 44.8% | 98.4% | 1.3% |
| SRR29474901_1 | 60.8% | 93.1% | 8274.7Mb | 59.9M | 46.0% | 98.5% | 1.4% |
| SRR29474902_1 | 46.3% | 93.1% | 8023.0Mb | 58.0M | 44.6% | 98.5% | 1.1% |
| SRR29474903_1 | 41.2% | 92.5% | 8011.0Mb | 58.3M | 45.1% | 98.3% | 1.4% |
| SRR29474904_1 | 53.0% | 93.0% | 7503.1Mb | 54.4M | 45.2% | 98.1% | 1.1% |
| SRR29474905_1 | 25.8% | 93.3% | 8149.7Mb | 58.8M | 44.3% | 98.5% | 2.1% |
| SRR29474906_1 | 28.5% | 93.2% | 8257.9Mb | 59.6M | 44.7% | 98.6% | 1.5% |
| SRR29474907_1 | 30.9% | 93.2% | 7836.4Mb | 56.7M | 44.6% | 98.3% | 1.5% |
| SRR29474908_1 | 25.7% | 93.2% | 8044.4Mb | 58.1M | 44.5% | 98.6% | 1.6% |
| SRR29474909_1 | 25.6% | 92.5% | 8081.3Mb | 58.9M | 44.6% | 98.3% | 1.3% |
| SRR29474910_1 | 53.8% | 93.5% | 7840.4Mb | 56.5M | 44.8% | 98.4% | 2.0% |
| SRR29474911_1 | 28.5% | 93.4% | 8058.4Mb | 58.2M | 44.1% | 98.6% | 2.6% |
| SRR29474912_1 | 30.8% | 93.2% | 7995.0Mb | 57.7M | 44.6% | 98.6% | 1.1% |
| SRR29474913_1 | 31.9% | 93.2% | 8043.1Mb | 58.1M | 44.2% | 98.5% | 1.7% |
| SRR29474914_1 | 36.7% | 93.3% | 7286.0Mb | 52.6M | 44.3% | 98.6% | 1.8% |
| SRR29474915_1 | 24.4% | 92.6% | 8903.7Mb | 64.9M | 44.4% | 97.9% | 1.7% |
| SRR29474916_1 | 24.4% | 92.9% | 7790.5Mb | 56.5M | 44.3% | 98.4% | 1.6% |
| SRR33595210_1 | 32.0% | 96.5% | 6579.2Mb | 46.6M | 44.2% | 99.7% | 1.9% |
| SRR33595211_1 | 31.1% | 97.1% | 7225.9Mb | 50.6M | 43.6% | 99.8% | 1.8% |
| SRR33595212_1 | 29.8% | 97.2% | 7900.0Mb | 55.3M | 43.6% | 99.8% | 1.7% |
| SRR33595213_1 | 28.4% | 97.2% | 6867.2Mb | 48.1M | 43.5% | 99.8% | 2.3% |
| SRR33595214_1 | 31.1% | 97.1% | 6737.0Mb | 47.4M | 43.5% | 99.8% | 2.3% |
| SRR33595215_1 | 25.8% | 97.0% | 5965.2Mb | 41.9M | 43.6% | 99.8% | 2.1% |
| SRR33595216_1 | 29.3% | 96.9% | 7509.2Mb | 52.8M | 43.3% | 99.8% | 2.1% |
| SRR33595217_1 | 34.1% | 96.9% | 7080.6Mb | 49.8M | 43.6% | 99.8% | 1.9% |
| SRR33595218_1 | 35.5% | 96.6% | 7088.1Mb | 50.0M | 44.4% | 99.7% | 1.5% |
| SRR33595219_1 | 34.4% | 97.0% | 7546.6Mb | 53.0M | 44.4% | 99.8% | 1.9% |
| SRR33595220_1 | 29.4% | 96.9% | 7011.0Mb | 49.3M | 43.6% | 99.8% | 1.7% |
| SRR33595221_1 | 28.9% | 97.1% | 7878.6Mb | 55.2M | 44.0% | 99.8% | 1.8% |
fastp
0.23.4
All-in-one FASTQ preprocessor (QC, adapters, trimming, filtering, splitting...).URL: https://github.com/OpenGene/fastpDOI: 10.1093/bioinformatics/bty560
Fastp goes through fastq files in a folder and perform a series of quality control and filtering. Quality control and reporting are displayed both before and after filtering, allowing for a clear depiction of the consequences of the filtering process. Notably, the latter can be conducted on a variety of parameters including quality scores, length, as well as the presence of adapters, polyG, or polyX tailing.Filtered Reads
Filtering statistics of sampled reads.
Insert Sizes
Insert size estimation of sampled reads.
Sequence Quality
Average sequencing quality over each base of all reads.
GC Content
Average GC content over each base of all reads.
N content
Average N content over each base of all reads.
Software Versions
Software Versions lists versions of software tools extracted from file contents.
| Software | Version |
|---|---|
| fastp | 0.23.4 |